# List of top-scoring protein chains for t04-100-30-near-backbone-11-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 2cpl 165 2.00e-37 2cpl b.62.1.1 27420 1yndA 165 2.18e-37 1dywA 173 2.26e-37 2cpl b.62.1.1 27505 1awsA 164 3.08e-37 2cpl b.62.1.1 27431 2bitX 165 3.88e-37 1ihgA 370 4.42e-37 2cpl a.118.8.1,b.62.1.1 62380,62381 1awqA 164 4.71e-37 2cpl b.62.1.1 27461 1a58 177 7.40e-37 2cpl b.62.1.1 27495 1xo7A 166 2.08e-36 2rmcA 182 2.62e-36 2cpl b.62.1.1 27491 2cfeA 162 2.62e-36 1zcxA 178 3.06e-36 1qoiA 177 3.64e-36 2cpl b.62.1.1 27490 1vdnA 162 8.82e-36 1h0pA 182 3.26e-35 b.62.1.1 76450 2a2nA 176 8.88e-34 1zkcA 197 1.85e-33 1xwnA 174 4.16e-33 2fu0A 160 3.43e-32 2b71A 196 1.22e-31 1v9tA 166 3.22e-29 b.62.1.1 108451 1lopA 164 3.90e-29 2cpl b.62.1.1 27510 1j2aA 166 4.38e-29 b.62.1.1 90779 1mxiA 160 4.12e-01 c.116.1.1 79646 1zx8A 136 1.43e+00 1vqvA 306 3.20e+00 1mdbA 539 4.10e+00 e.23.1.1 79008 2gcuA 245 4.51e+00 1o86A 589 4.79e+00 d.92.1.5 81177 1dgnA 89 4.94e+00 1dgnA a.77.1.3 18436 1o26A 232 7.51e+00 d.207.1.1 86566 1uzeA 589 8.75e+00 d.92.1.5 108174 1icpA 376 9.98e+00 1oyc c.1.4.1 62270 1qmpA 130 1.03e+01 1dz3A c.23.1.1 31106 2fug5 207 1.20e+01 1dz3A 130 1.22e+01 1dz3A c.23.1.1 31105 1rypL 212 1.27e+01 d.153.1.4 41880 1vr0A 247 1.48e+01 2b8mA 117 1.49e+01 2masA 314 1.53e+01 2masA c.70.1.1 34810 1wraA 308 1.69e+01 1m3iA 471 1.77e+01 f.9.1.1 91178 1fj2A 232 1.89e+01 1auoA c.69.1.14 34720 1c4rA 182 2.08e+01 1c4rA b.29.1.4 24229 2fdiA 211 2.12e+01 1q45A 391 2.20e+01 c.1.4.1 95780 1ufbA 127 2.24e+01 a.24.16.3 99331 1g8iA 190 2.39e+01 1rec a.39.1.5 60363 1zroA 602 2.42e+01 1o04A 500 2.75e+01 c.82.1.1 86508 1tmy 120 2.76e+01 1dbwA c.23.1.1 31083 1ituA 369 2.80e+01 c.1.9.7 71423 1k66A 149 2.94e+01 c.23.1.1 90941 1k68A 140 2.98e+01 c.23.1.1 90943 1uocA 289 3.09e+01 c.55.3.9 99686 1pg6A 243 3.20e+01 b.82.5.2 94673 1e5kA 201 3.23e+01 1fr9A c.68.1.8 34578 1cbjA 151 3.27e+01 1mfmA b.1.8.1 22213 1n4qB 377 3.43e+01 a.102.4.3 91636 1vjvA 415 3.48e+01 d.3.1.9 108632 1e9pA 151 3.50e+01 1mfmA b.1.8.1 22215 2a5kA 307 3.51e+01 1c8zA 265 3.63e+01 1c8zA d.23.1.1 38375 2gfhA 260 3.76e+01 1dl5A 317 3.82e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1zoxA 113 3.86e+01 1yo8A 634 3.94e+01 1y42X 392 3.96e+01 2gk3A 256 4.05e+01 2b4wA 315 4.19e+01 1u0sY 118 4.26e+01 c.23.1.1 107566 2c1iA 431 4.35e+01 4ubpC 570 4.53e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1q0eA 152 4.57e+01 b.1.8.1 95504 1wi1A 126 4.72e+01 1b77A 228 4.72e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1oktA 211 4.93e+01 a.45.1.1,c.47.1.5 93272,93273 1zgkA 308 4.98e+01 2abbA 364 5.08e+01 1u6dX 308 5.09e+01 1vyrA 364 5.16e+01 c.1.4.1 108906 1pswA 348 5.18e+01 c.87.1.7 88287 1umuA 116 5.20e+01 1umuA b.87.1.1 28382 1pfo 500 5.25e+01 1pfo f.9.1.1 43826 2amdA 311 5.26e+01 1s8nA 205 5.30e+01 c.23.1.1 105374 1tllA 688 5.37e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1gvoA 364 5.67e+01 c.1.4.1 76357 1vypX 364 5.77e+01 c.1.4.1 108905 1e9rA 437 5.77e+01 c.37.1.11 64827 1kbvA 327 5.78e+01 b.6.1.3,b.6.1.3 68395,68396 1h61A 364 5.79e+01 1oyc c.1.4.1 60657 1sqsA 242 5.93e+01 c.23.5.5 98968 1aa8A 347 6.13e+01 1an9A 1yzxA 226 6.25e+01 1oflA 481 6.26e+01 b.80.1.4 103934 1gggA 226 6.27e+01 1lst c.94.1.1 35817 1pwhA 327 6.33e+01 c.79.1.1 95224 2b7yA 182 6.38e+01 1i3cA 149 6.50e+01 c.23.1.1 71112 2f71A 298 6.57e+01 1pm3A 78 6.61e+01 b.41.1.2 94889 1b1cA 181 6.70e+01 1amoA c.23.5.2 31212 1fjjA 159 6.78e+01 1fjjA b.17.1.2 59852 1g7fA 298 6.84e+01 1pty c.45.1.2 60330 1qr0A 228 6.93e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1guxA 218 7.00e+01 1guxA a.74.1.3 18388 1z2lA 423 7.17e+01 2aeuA 374 7.17e+01 1dbgA 506 7.27e+01 1dbgA b.80.1.4 28033 1q2wA 308 7.38e+01 b.47.1.4 88355 1a8y 367 7.43e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1dboA 506 7.44e+01 1dbgA b.80.1.4 28034 1vkcA 158 7.53e+01 1rx0A 393 7.57e+01 a.29.3.1,e.6.1.1 98007,98008 1zowA 313 7.71e+01 1j9yA 385 7.71e+01 1j9yA c.1.8.3 62791 1w3iA 293 7.79e+01 c.1.10.1 109152 2gsvA 80 7.94e+01 1vh7A 265 7.96e+01 c.1.2.1 100646 1pguA 615 8.01e+01 b.69.4.1,b.69.4.1 88069,88070 1yoxA 250 8.30e+01 1x24A 180 8.49e+01 1t5rA 284 8.53e+01 f.6.1.1 106465 1kgsA 225 8.60e+01 a.4.6.1,c.23.1.1 68596,68597 1ptvA 321 8.61e+01 1pty c.45.1.2 32665 1w96A 554 8.61e+01 2b5oA 402 8.67e+01 1pbyA 489 8.75e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1nycA 111 8.78e+01 b.61.2.2 92336 2bdrA 175 8.78e+01 1i6iA 366 8.90e+01 1bg2 c.37.1.9 61844 1f0iA 504 8.90e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1pa1A 310 8.92e+01 c.45.1.2 94404